Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0001687

Physical Location & Seq

Genomic Coordinates Reverse (-)

437059 .. 438150

Gene Structure 1092 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG004700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 639 bp

ATGGGGAAGAGTAATGGCTGCAAGGTTTGTATTACAGGAGGTGCAGGGTACATAGGCTCTTGGCTTGTCAAGAAGCTTTTAGAGAAGGGATACACTGTCCAAGCAACACTCAGAAACTTGGATGATGTTTCGAAGGTGAGCCTTCTGAAGTGCCTTCCTGATTCTGATGAAAGGCTAGTGCTTTTTGAAGCTGACTTCTATAATCCAGTTACGTTTGAGCAGGCAATTGAAGGATGTGAATTTGTTTTCCATGACTGTGAAGATTCAAAGACACTGGCAGAGAAAGAAATCTTGAGCTATGTGAATCGCAACAAAAGAAGTGGACTTGAGATTGTGAGCTTGGCCTGTGGTCTTGTGGGAGGGGACTCACTTCCATCATTCACGCCTGTAACTGTAGCTTGTTTAGTTTCTCAGCATACAAATAGTGCAAATGAGTACAATTGTCTGAGATTCTTAGAGGAATTGCTAGGGAAAATTCCAATAGTCCATATTGATGATGTTTGTGATGCTCATATCTTCTGCATGGAGAGTCCTTCAATAAATGGAAGGTTTCAGTGCACAAGATCCTATGTTTCATGTGCACAAATTGCTAGTTACTATCAGCAACATTATCCAGAACTTGAAGTGAAGCAAGAGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

3Beta_HSD Epimerase

Protein Analysis

212

Amino Acids

23.58

Weight (kDa)

5.07

Isoelectric Point (pI)

55.11

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
NmrA	PF05368	8 - 87	1.4e-06	NmrA-like family
Epimerase	PF01370	9 - 86	3.7e-07	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	11 - 80	1.6e-08	GDP-mannose 4,6 dehydratase
NAD_binding_10	PF13460	13 - 91	2.2e-07	NAD(P)H-binding

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0001687)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_5g04220 FvH4_5g04220 FvH4_5g04260 FvH4_5g33950 FvH4_7g16111 FvH4_7g16111 FvH4_7g16111 FvH4_7g16130
malus_domestica	MD01G1077400.v1.1 MD01G1077800.v1.1 MD01G1077900.v1.1 MD06G1103800.v1.1 MD06G1103900.v1.1
prunus_persica	Prupe.2G184900_v2.0.a1 Prupe.2G185000_v2.0.a1 Prupe.5G116400_v2.0.a1 Prupe.5G116600_v2.0.a1
pyrus_communis	pycom01g10650 pycom06g09850 pycom07g14620
rosa_chinensis	RchiOBHm_Chr1g0359081 RchiOBHm_Chr7g0195261
rosa_laevigata	RLG00000004136 RLG00000027901 RLG00000027902
rosa_multiflora	Rmu_sc0002381.1_g000008 Rmu_sc0007214.1_g000002 Rmu_sc0007680.1_g000001 Rmu_sc0007680.1_g000010
rosa_roxburghii	Rroxscaffold_4G00297370 Rroxscaffold_4G00297390
rosa_rugosa	Rorug01G0267600 Rorug07G0021900 Rorug07G0022000 Rorug07G0022100
rosa_samantha	Rh1AG281000 Rh1BG248100 Rh1CG265700 Rh1DG276500 Rh2AG004700 Rh7AG149200 Rh7BG150300 Rh7BG150400 Rh7CG154000 Rh7DG150400
rosa_wichuraiana	Rw0G020520 Rw1G025010 Rw6G011300 Rw7G012740

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	558
AcsI	RAATTY	2 cut(s)	239, 474
AcuI	CTGAAG	1 cut(s)	167
AfaI	GTAC	2 cut(s)	50, 437
AgsI	TTSAA	5 cut(s)	188, 230, 267, 537, 623
AluBI	AGCT	5 cut(s)	76, 191, 297, 339, 398
AluI	AGCT	5 cut(s)	76, 191, 297, 339, 398
Alw21I	GWGCWC	2 cut(s)	560, 583
Alw44I	GTGCAC	2 cut(s)	556, 579
AlwI	GGATC	1 cut(s)	558
AoxI	GGCC	1 cut(s)	342
ApaLI	GTGCAC	2 cut(s)	556, 579
ApeKI	GCWGC	1 cut(s)	18
ApoI	RAATTY	2 cut(s)	239, 474
AsuHPI	GGTGA	1 cut(s)	148
AsuII	TTCGAA	1 cut(s)	131
BaeGI	GKGCMC	2 cut(s)	560, 583
Bbv12I	GWGCWC	2 cut(s)	560, 583
BbvI	GCAGC	1 cut(s)	5
BccI	CCATC	1 cut(s)	382
BciVI	GTATCC	1 cut(s)	83
BfaI	CTAG	3 cut(s)	176, 467, 591
BfmI	CTRYAG	1 cut(s)	393
BfuI	GTATCC	1 cut(s)	83
BisI	GCNGC	1 cut(s)	19
BlsI	GCNGC	1 cut(s)	20
BmsI	GCATC	1 cut(s)	496
Bpu14I	TTCGAA	1 cut(s)	131
BpuEI	CTTGAG	2 cut(s)	313, 347
Bse1I	ACTGG	2 cut(s)	206, 279
BseGI	GGATG	2 cut(s)	127, 239
BseMII	CTCAG	3 cut(s)	124, 425, 437
BseNI	ACTGG	2 cut(s)	206, 279
BseSI	GKGCMC	2 cut(s)	560, 583
BseXI	GCAGC	1 cut(s)	5
BsgI	GTGCAG	1 cut(s)	63
BshFI	GGCC	1 cut(s)	344
BsiHKAI	GWGCWC	2 cut(s)	560, 583
BslFI	GGGAC	1 cut(s)	377
BsmFI	GGGAC	1 cut(s)	377
BsnI	GGCC	1 cut(s)	344
Bsp119I	TTCGAA	1 cut(s)	131
Bsp1286I	GDGCHC	2 cut(s)	560, 583
Bsp143I	GATC	1 cut(s)	563
BspANI	GGCC	1 cut(s)	344
BspCNI	CTCAG	3 cut(s)	123, 424, 438
BspPI	GGATC	1 cut(s)	558
BspT104I	TTCGAA	1 cut(s)	131
BsrI	ACTGG	2 cut(s)	206, 279
BssMI	GATC	1 cut(s)	563
Bst4CI	ACNGT	3 cut(s)	97, 257, 394
Bst6I	CTCTTC	1 cut(s)	2
BstAPI	GCANNNNNTGC	1 cut(s)	587
BstBI	TTCGAA	1 cut(s)	131
BstC8I	GCNNGC	1 cut(s)	222
BstDEI	CTNAG	4 cut(s)	110, 411, 446, 454
BstF5I	GGATG	2 cut(s)	127, 239
BstKTI	GATC	1 cut(s)	566
BstMBI	GATC	1 cut(s)	563
BstMWI	GCNNNNNNNGC	1 cut(s)	587
BstSFI	CTRYAG	1 cut(s)	393
BstSLI	GKGCMC	2 cut(s)	560, 583
BstV1I	GCAGC	1 cut(s)	5
BstX2I	RGATCY	1 cut(s)	563
BstYI	RGATCY	1 cut(s)	563
BsuI	GTATCC	1 cut(s)	83
BsuRI	GGCC	1 cut(s)	344
BtsCI	GGATG	2 cut(s)	127, 239
BtsIMutI	CAGTG	3 cut(s)	93, 272, 560
Cac8I	GCNNGC	1 cut(s)	222
Csp6I	GTAC	2 cut(s)	49, 436
CspCI	CAANNNNNGTGG	2 cut(s)	301, 336
CviAII	CATG	3 cut(s)	251, 523, 576
CviQI	GTAC	2 cut(s)	49, 436
DdeI	CTNAG	4 cut(s)	110, 411, 446, 454
DpnI	GATC	1 cut(s)	565
DpnII	GATC	1 cut(s)	563
Eam1104I	CTCTTC	1 cut(s)	2
EarI	CTCTTC	1 cut(s)	2
Eco57I	CTGAAG	1 cut(s)	167
FaeI	CATG	3 cut(s)	254, 526, 579
FaqI	GGGAC	1 cut(s)	377
FatI	CATG	3 cut(s)	250, 522, 575
Fnu4HI	GCNGC	1 cut(s)	19
FokI	GGATG	2 cut(s)	134, 246
Fsp4HI	GCNGC	1 cut(s)	19
FspBI	CTAG	3 cut(s)	176, 467, 591
GluI	GCNGC	1 cut(s)	19
HaeIII	GGCC	1 cut(s)	344
Hin1II	CATG	3 cut(s)	254, 526, 579
HindIII	AAGCTT	1 cut(s)	74
HinfI	GANTC	6 cut(s)	161, 263, 304, 365, 450, 529
HphI	GGTGA	1 cut(s)	148
Hpy166II	GTNNAC	3 cut(s)	323, 558, 581
Hpy188I	TCNGA	4 cut(s)	113, 147, 166, 447
Hpy188III	TCNNGA	4 cut(s)	70, 158, 292, 614
Hpy8I	GTNNAC	3 cut(s)	323, 558, 581
HpyAV	CCTTC	7 cut(s)	79, 127, 152, 164, 224, 540, 543
HpyCH4III	ACNGT	3 cut(s)	97, 257, 394
HpyCH4IV	ACGT	1 cut(s)	212
HpyCH4V	TGCA	6 cut(s)	21, 44, 428, 522, 558, 581
HpyF10VI	GCNNNNNNNGC	1 cut(s)	587
HpyF3I	CTNAG	4 cut(s)	110, 411, 446, 454
HpySE526I	ACGT	1 cut(s)	212
Hsp92II	CATG	3 cut(s)	254, 526, 579
Kzo9I	GATC	1 cut(s)	563
LpnPI	CCDG	9 cut(s)	21, 30, 171, 206, 219, 260, 358, 399, 627
Lsp1109I	GCAGC	1 cut(s)	5
LweI	GCATC	1 cut(s)	496
MaeI	CTAG	3 cut(s)	176, 467, 591
MaeII	ACGT	1 cut(s)	212
MaeIII	GTNAC	3 cut(s)	208, 388, 593
MalI	GATC	1 cut(s)	565
MboI	GATC	1 cut(s)	563
MboII	GAAGA	3 cut(s)	19, 272, 508
MfeI	CAATTG	2 cut(s)	225, 439
MflI	RGATCY	1 cut(s)	563
MhlI	GDGCHC	2 cut(s)	560, 583
MluCI	AATT	6 cut(s)	225, 239, 439, 461, 474, 585
MlyI	GAGTC	2 cut(s)	359, 538
MnlI	CCTC	3 cut(s)	32, 353, 451
MslI	CAYNNNNRTG	2 cut(s)	255, 492
MunI	CAATTG	2 cut(s)	225, 439
MwoI	GCNNNNNNNGC	1 cut(s)	587
NdeII	GATC	1 cut(s)	563
NlaIII	CATG	3 cut(s)	254, 526, 579
NspV	TTCGAA	1 cut(s)	131
PfeI	GAWTC	4 cut(s)	161, 263, 304, 450
PkrI	GCNGC	1 cut(s)	20
PleI	GAGTC	2 cut(s)	359, 537
PpsI	GAGTC	2 cut(s)	359, 537
PsuI	RGATCY	1 cut(s)	563
RsaI	GTAC	2 cut(s)	50, 437
RsaNI	GTAC	2 cut(s)	49, 436
RseI	CAYNNNNRTG	2 cut(s)	255, 492
SatI	GCNGC	1 cut(s)	19
Sau3AI	GATC	1 cut(s)	563
SchI	GAGTC	2 cut(s)	359, 538
SduI	GDGCHC	2 cut(s)	560, 583
SfaNI	GCATC	1 cut(s)	496
SfcI	CTRYAG	1 cut(s)	393
SfuI	TTCGAA	1 cut(s)	131
SmiMI	CAYNNNNRTG	2 cut(s)	255, 492
SmlI	CTYRAG	2 cut(s)	292, 326
SmoI	CTYRAG	2 cut(s)	292, 326
Sse9I	AATT	6 cut(s)	225, 239, 439, 461, 474, 585
SspMI	CTAG	3 cut(s)	176, 467, 591
TaaI	ACNGT	3 cut(s)	97, 257, 394
TaiI	ACGT	1 cut(s)	215
TaqI	TCGA	1 cut(s)	131
TasI	AATT	6 cut(s)	225, 239, 439, 461, 474, 585
TatI	WGTACW	1 cut(s)	435
TfiI	GAWTC	4 cut(s)	161, 263, 304, 450
TscAI	CASTG	3 cut(s)	100, 279, 560
TseI	GCWGC	1 cut(s)	18
TspDTI	ATGAA	2 cut(s)	183, 564
TspRI	CASTG	3 cut(s)	100, 279, 560
VneI	GTGCAC	2 cut(s)	556, 579
XapI	RAATTY	2 cut(s)	239, 474
XspI	CTAG	3 cut(s)	176, 467, 591

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.